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Next Generation Sequencing Technologies And Challenges In Sequence Assembly

Author: Sara El-Metwally, M.Sc
Publisher: Springer Science & Business
ISBN: 1493907158
Size: 49.57 MB
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The introduction of Next Generation Sequencing (NGS) technologies resulted in a major transformation in the way scientists extract genetic information from biological systems, revealing limitless insight about the genome, transcriptome and epigenome of any species. However, with NGS, came its own challenges that require continuous development in the sequencing technologies and bioinformatics analysis of the resultant raw data and assembly of the full length genome and transcriptome. Such developments lead to outstanding improvements of the performance and coverage of sequencing and improved quality for the assembled sequences, nevertheless, challenges such as sequencing errors, expensive processing and memory usage for assembly and sequencer specific errors remains major challenges in the field. This book aims to provide brief overviews the NGS field with special focus on the challenges facing the NGS field, including information on different experimental platforms, assembly algorithms and software tools, assembly error correction approaches and the correlated challenges.

Next Generation Sequencing And Sequence Assembly

Author: Ali Masoudi-Nejad
Publisher: Springer Science & Business Media
ISBN: 1461477263
Size: 15.50 MB
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The goal of this book is to introduce the biological and technical aspects of next generation sequencing methods, as well as algorithms to assemble these sequences into whole genomes. The book is organized into two parts; part 1 introduces NGS methods and part 2 reviews assembly algorithms and gives a good insight to these methods for readers new to the field. Gathering information, about sequencing and assembly methods together, helps both biologists and computer scientists to get a clear idea about the field. Chapters will include information about new sequencing technologies such as ChIp-seq, ChIp-chip, and De Novo sequence assembly. ​

Next Generation Sequencing And Sequence Assembly

Author: Ali Masoudi-Nejad
Publisher: Springer Science & Business Media
ISBN: 1461477263
Size: 71.41 MB
Format: PDF, ePub
View: 4958
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The goal of this book is to introduce the biological and technical aspects of next generation sequencing methods, as well as algorithms to assemble these sequences into whole genomes. The book is organized into two parts; part 1 introduces NGS methods and part 2 reviews assembly algorithms and gives a good insight to these methods for readers new to the field. Gathering information, about sequencing and assembly methods together, helps both biologists and computer scientists to get a clear idea about the field. Chapters will include information about new sequencing technologies such as ChIp-seq, ChIp-chip, and De Novo sequence assembly. ​

Pluripotency In Domestic Animal Cells

Author: Tiziana A.L. Brevini
Publisher: Springer Science & Business Media
ISBN: 1489980539
Size: 40.98 MB
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This addition to the Springer Brief in Stem Cells series focuses on aspects related to the specific mechanisms that ensure and control pluripotency and cell commitment in domestic animal species. This topic is generating rapidly-increasing interest due to the great potential for domestic animal species to be used as intermediate biomedical models, between the mouse and the human. The Brief addresses why we need large animal models for regenerative medicine. It also describes early embryo development with a careful and specific analysis of the regulatory mechanisms driving cleavage, polarization and genome activation in domestic species. How pluripotency is compartmentalized in domestic species as well as the different aspects that make the derivation of stem cells in domestic species very difficult are also addressed.

Big Data And Differential Privacy

Author: Nii O. Attoh-Okine
Publisher: John Wiley & Sons
ISBN: 1119229049
Size: 28.68 MB
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A comprehensive introduction to the theory and practice of contemporary data science analysis for railway track engineering Featuring a practical introduction to state-of-the-art data analysis for railway track engineering, Big Data and Differential Privacy: Analysis Strategies for Railway Track Engineering addresses common issues with the implementation of big data applications while exploring the limitations, advantages, and disadvantages of more conventional methods. In addition, the book provides a unifying approach to analyzing large volumes of data in railway track engineering using an array of proven methods and software technologies. Dr. Attoh-Okine considers some of today’s most notable applications and implementations and highlights when a particular method or algorithm is most appropriate. Throughout, the book presents numerous real-world examples to illustrate the latest railway engineering big data applications of predictive analytics, such as the Union Pacific Railroad’s use of big data to reduce train derailments, increase the velocity of shipments, and reduce emissions. In addition to providing an overview of the latest software tools used to analyze the large amount of data obtained by railways, Big Data and Differential Privacy: Analysis Strategies for Railway Track Engineering: • Features a unified framework for handling large volumes of data in railway track engineering using predictive analytics, machine learning, and data mining • Explores issues of big data and differential privacy and discusses the various advantages and disadvantages of more conventional data analysis techniques • Implements big data applications while addressing common issues in railway track maintenance • Explores the advantages and pitfalls of data analysis software such as R and Spark, as well as the Apache™ Hadoop® data collection database and its popular implementation MapReduce Big Data and Differential Privacy is a valuable resource for researchers and professionals in transportation science, railway track engineering, design engineering, operations research, and railway planning and management. The book is also appropriate for graduate courses on data analysis and data mining, transportation science, operations research, and infrastructure management. NII ATTOH-OKINE, PhD, PE is Professor in the Department of Civil and Environmental Engineering at the University of Delaware. The author of over 70 journal articles, his main areas of research include big data and data science; computational intelligence; graphical models and belief functions; civil infrastructure systems; image and signal processing; resilience engineering; and railway track analysis. Dr. Attoh-Okine has edited five books in the areas of computational intelligence, infrastructure systems and has served as an Associate Editor of various ASCE and IEEE journals.

Next Generation Sequencing Technologies In Medical Genetics

Author: C. Alexander Valencia
Publisher: Springer Science & Business Media
ISBN: 1461490324
Size: 26.49 MB
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This book introduces readers to Next Generation Sequencing applications in medical genetics. The authors discuss the direct application of next-generation sequencing to medicine, specifically, laboratory medicine or molecular diagnostics. The first part of the book contains chapters on sanger sequencing, NGS technologies, targeted-amplification and capture, and exome sequencing. The second part of the book focuses on genetic disorders diagnoses by NGS, prenatal diagnosis, muscular dystrophies, mitochondrial disorders diagnosis, and challenges in molecular diagnosis. Recent developments and potential future trends in NGS sequencing applications are highlighted, as well.​

Big Data

Author: Min Chen
Publisher: Springer
ISBN: 331906245X
Size: 40.18 MB
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This Springer Brief provides a comprehensive overview of the background and recent developments of big data. The value chain of big data is divided into four phases: data generation, data acquisition, data storage and data analysis. For each phase, the book introduces the general background, discusses technical challenges and reviews the latest advances. Technologies under discussion include cloud computing, Internet of Things, data centers, Hadoop and more. The authors also explore several representative applications of big data such as enterprise management, online social networks, healthcare and medical applications, collective intelligence and smart grids. This book concludes with a thoughtful discussion of possible research directions and development trends in the field. Big Data: Related Technologies, Challenges and Future Prospects is a concise yet thorough examination of this exciting area. It is designed for researchers and professionals interested in big data or related research. Advanced-level students in computer science and electrical engineering will also find this book useful.

Community Oriented Policing And Technological Innovations

Author: Georgios Leventakis
Publisher: Springer
ISBN: 3319892940
Size: 33.56 MB
Format: PDF
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This Brief presents new approaches and innovative challenges to address bringing technology into community-oriented policing efforts. “Community-oriented policing” is an approach that encourages police to develop and maintain personal relationships with citizens and community organizations. By developing these partnerships, the goal is to enhance trust and legitimacy of police by the community (and vice versa), and focus on engaging the community crime prevention and detection efforts for sustainable, long-term crime reduction. The contributions to this volume emphasize how technological innovations can advance community-oriented policing goals, such as: -Strengthening community policing principles through effective and efficient tools, procedures and approaches - Accelerating communication between citizens and police forces - Early identification, timely intervention, as well as better crime reporting, identification of risks, unreported and undiscovered crime through the community Contributions to this volume were developed out of the Next Generation Community Policing (NGCP) International Conference was co-organized by nine contributing research and development projects, funded by the Horizon 2020 SECURITY Program of the European Commission. It will be of interest to researchers in criminology and criminal justice, as well as related fields such as sociology, public health, security, IT and public policy. This book is open access under a CC BY license.

Lasso Peptides

Author: Yanyan Li
Publisher: Springer
ISBN: 1493910108
Size: 55.81 MB
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Lasso peptides form a growing family of fascinating ribosomally-synthesized and post-translationally modified peptides produced by bacteria. They contain 15 to 24 residues and share a unique interlocked topology that involves an N-terminal 7 to 9-residue macrolactam ring where the C-terminal tail is threaded and irreversibly trapped. The ring results from the condensation of the N-terminal amino group with a side-chain carboxylate of a glutamate at position 8 or 9, or an aspartate at position 7, 8 or 9. The trapping of the tail involves bulky amino acids located in the tail below and above the ring and/or disulfide bridges connecting the ring and the tail. Lasso peptides are subdivided into three subtypes depending on the absence (class II) or presence of one (class III) or two (class I) disulfide bridges. The lasso topology results in highly compact structures that give to lasso peptides an extraordinary stability towards both protease degradation and denaturing conditions. Lasso peptides are generally receptor antagonists, enzyme inhibitors and/or antibacterial or antiviral (anti-HIV) agents. The lasso scaffold and the associated biological activities shown by lasso peptides on different key targets make them promising molecules with high therapeutic potential. Their application in drug design has been exemplified by the development of an integrin antagonist based on a lasso peptide scaffold. The biosynthesis machinery of lasso peptides is therefore of high biotechnological interest, especially since such highly compact and stable structures have to date revealed inaccessible by peptide synthesis. Lasso peptides are produced from a linear precursor LasA, which undergoes a maturation process involving several steps, in particular cleavage of the leader peptide and cyclization. The post-translational modifications are ensured by a dedicated enzymatic machinery, which is composed of an ATP-dependent cysteine protease (LasB) and a lactam synthetase (LasC) that form an enzymatic complex called lasso synthetase. Microcin J25, produced by Escherichia coli AY25, is the archetype of lasso peptides and the most extensively studied. To date only around forty lasso peptides have been isolated, but genome mining approaches have revealed that they are widely distributed among Proteobacteria and Actinobacteria, particularly in Streptomyces, making available a rich resource of novel lasso peptides and enzyme machineries towards lasso topologies.

Industry Interactive Innovations In Science Engineering And Technology

Author: Swapan Bhattacharyya
Publisher: Springer
ISBN: 9811039534
Size: 71.57 MB
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The book is a collection of peer-reviewed scientific papers submitted by active researchers in the International Conference on Industry Interactive Innovation in Science, Engineering and Technology (I3SET 2016). The conference is a collective initiative of all departments and disciplines of JIS College of Engineering (an autonomous institution), Kalyani, West Bengal, India. The primary objective of the conference is to strengthen interdisciplinary research and encourage innovation in a demand-driven way as desired by the industry for escalating technology for mankind. A galaxy of academicians, professionals, scientists, industry people and researchers from different parts of the country and abroad shared and contributed their knowledge. The major areas of I3SET 2016 include nonconventional energy and advanced power systems; nanotechnology and applications; pattern recognition and machine intelligence; digital signal and image processing; modern instrumentation, control, robotics and automation; civil engineering and structural design; real-time and embedded systems, communication and devices; advanced optimization techniques; biotechnology, biomedical instrumentation and bioinformatics; and outcome based education.